Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 2 | 6 | 7.48 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| JGOOKDBC_11 | 48451 | 49497 | clbA | ARO:3002814 | clbA | 93.35 | 99.71 | CP006845.1 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| JGOOKDBC_11 | 48454 | 49497 | cfr(B) | Chloramphenicol, Florfenicol, Clindamycin, Lincomycin, Linezolid, Dalfopristin, Pristinamycin IIA, Virginiamycin M, Tiamulin | 88.71 | 99.33 | KR610408 |
| JGOOKDBC_10 | 412301 | 413677 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 87.22 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| JGOOKDBC_11 | 48454 | 49497 | clbA | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbA | BLASTX | 92.82 | 99.71 | WP_012116915.1 |
| JGOOKDBC_10 | 412301 | 413671 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 87.31 | 99.78 | WP_003242953.1 |
| JGOOKDBC_11 | 51245 | 51763 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 82.08 | 100.00 | WP_003242546.1 |
| JGOOKDBC_8 | 129943 | 132540 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 100.00 | WP_087347987.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| JGOOKDBC_9 | 502970 | 504151 | capB | 0.0 | Capsule | Immune modulation | 82.12 | 99.66 | NP_391471 |
| JGOOKDBC_9 | 504166 | 504615 | capC | 7.98e-116 | Capsule | Immune modulation | 83.81 | 99.78 | NP_391470 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| JGOOKDBC_13 | 31774 | 32910 | tufA | 0.0 | elongation factor Tu | 86.54 | 95.69 | AHM69299 |
| JGOOKDBC_15 | 12595 | 11726 | pdxS | 6.45e-153 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| JGOOKDBC_8 | 371992 | 371216 | CodY | 9.70e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| JGOOKDBC_8 | 912989 | 912597 | spxA1 | 1.53e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| JGOOKDBC_11 | 71162 | 70965 | CspA | 5.94e-32 | cold shock protein | 92.42 | 100.00 | CAA62903 |
| JGOOKDBC_11 | 71162 | 70968 | CspR | 2.95e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| JGOOKDBC_9 | 865010 | 865882 | lipA (SAUSA300_0829) | 3.22e-162 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| JGOOKDBC_5 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_8 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_9 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_10 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_11 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_12 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_13 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_14 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_15 | 0.0 | 1.0 | 0.0 |
| JGOOKDBC_16 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| JGOOKDBC_8 | 239866 | 264842 | False | Siphoviridae | VOG4707, VOG0641, VOG7896, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG0713, VOG0531 |
| JGOOKDBC_8 | 748541 | 775852 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG7947, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG5216, VOG9667 |
| JGOOKDBC_8 | 847556 | 863782 | False | Siphoviridae | VOG4910, VOG4713, VOG4553, VOG4555, VOG0720, VOG5023, VOG0221, VOG3699, VOG4995, VOG8610, VOG4705 |
| JGOOKDBC_10 | 227621 | 237120 | False | Unknown | VOG8483, VOG9667, VOG9667, VOG4552, VOG4600, VOG1309, VOG4566, VOG0189, VOG0044 |
| JGOOKDBC_10 | 244631 | 271673 | False | Myoviridae | VOG0796, VOG0720, VOG4555, VOG4572, VOG1643, VOG4564, VOG4623, VOG1353, VOG1881, VOG1883, VOG1352, VOG4699, VOG6163, VOG1956, VOG1433, VOG1348, VOG0573, VOG4550, VOG4691, VOG4845, VOG7718, VOG3390, VOG7895, VOG0753, VOG0136, VOG10230, VOG6750 |
| JGOOKDBC_12 | 10057 | 21946 | False | Siphoviridae | VOG6513, VOG0275, VOG4602, VOG3304, VOG9667, VOG4603, VOG0806, VOG4322, VOG0650, VOG4552, VOG8233, VOG0186, VOG4566, VOG0189 |
| JGOOKDBC_12 | 25677 | 53347 | False | Siphoviridae | VOG0397, VOG6581, VOG5447, VOG3631, VOG4972, VOG4681, VOG0796, VOG10227, VOG0720, VOG4564, VOG4555, VOG1329, VOG2621, VOG5872, VOG4623, VOG0816, VOG5660, VOG0724, VOG0799, VOG0725, VOG1323, VOG4545, VOG4605, VOG4599, VOG5535, VOG0753, VOG0136, VOG10230, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)